Skip to another splice site:
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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCAAGCCCATCCGATCAGGAGAACTTCCCCTTTGTAGTACTTGGAAATAAAGTGGACGTGGATGGTGGCAATAGTCGAGTGgtaagcttattcaagtcttattttgggttcaaccctcaaattcatacagcaaaggaccattagatcataatatatccatcgatgggccctggagctgaattatccttttaaactcctgcctttgtgaaaacctcatcacctctgatttctttggactgcacag

Basic information

species Physcomitrella patens
transcript PP1S61_279V6.1
intron # 4
splice site 5'
intron type U2

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|100359334|gb|BY965696.1|BY965696
EST:     TTGTAGTACTTGGAAATAAAGTGGACGTGGATGGTGGCAATAGTCGAGTG                         GTCTCCGAGAAGA-GGCCAAAGCATGGTGTGCAGCGAAAGGAGGCATCCCC
genomic: TTGTAGTACTTGGAAATAAAGTGGACGTGGATGGTGGCAATAGTCGAGTGgtaagcttat ... gactgcacagGTCTCCGAGAAGAAGGCCAAAGCATGGTGTGCAGCGAAAGGAGGCATCCCC
EST: gi|100411870|gb|BY992381.1|BY992381
EST:     TTGTAGTACTTGGAAATAAAGTGGACGTGGATGGTGGCAATAGTCGAGTG                         GTCTCCGAGAAGAAGGCCAAAGCATGGTGTGCAGCGAAAGGAGGCATCCCC
genomic: TTGTAGTACTTGGAAATAAAGTGGACGTGGATGGTGGCAATAGTCGAGTGgtaagcttat ... gactgcacagGTCTCCGAGAAGAAGGCCAAAGCATGGTGTGCAGCGAAAGGAGGCATCCCC
EST: gi|100355333|gb|BY945882.1|BY945882
EST:     TTGTAGTACTTGGAAATAAAGTGGACGTGGATGGTGGCAATAGTCGAGTG                         GTCTCCGAGAAGAAGGCCAA-GCATGGTGTGCAGCGAAAGGAGG-ATCCCC
genomic: TTGTAGTACTTGGAAATAAAGTGGACGTGGATGGTGGCAATAGTCGAGTGgtaagcttat ... gactgcacagGTCTCCGAGAAGAAGGCCAAAGCATGGTGTGCAGCGAAAGGAGGCATCCCC
EST: gi|208378881|gb|DC927583.1|DC927583
EST:     TACTNGGAAATAAAGTGGACGTGGATGGTGGCAATAGTCGAGTG                         GTCTCCGAGAAGAAGGCCAAAGCATGGTGTGCAGCGAAAGGAGGCATCCCC
genomic: TACTTGGAAATAAAGTGGACGTGGATGGTGGCAATAGTCGAGTGgtaagcttat ... gactgcacagGTCTCCGAGAAGAAGGCCAAAGCATGGTGTGCAGCGAAAGGAGGCATCCCC
EST: gi|100442547|gb|BY963241.1|BY963241
EST:     TTGTAGTACTTGGAAATAAAGTGGACGTGGATGGTGGCAATAGTCGAGTG                         GTCTCCGAGAAGAAGGC-AAAGCATGGTGTGC
genomic: TTGTAGTACTTGGAAATAAAGTGGACGTGGATGGTGGCAATAGTCGAGTGgtaagcttat ... gactgcacagGTCTCCGAGAAGAAGGCCAAAGCATGGTGTGC
EST: gi|100385743|gb|BY987808.1|BY987808
EST:     TTGTAGTACTTGGAAATAAAGTGGACGTGGATGGTGGCAATAGTCGAGTG                         GTCTCCGAGAAGAAG-CCATAGCATGGTGTGCAGCGAAAGGAGG
genomic: TTGTAGTACTTGGAAATAAAGTGGACGTGGATGGTGGCAATAGTCGAGTGgtaagcttat ... gactgcacagGTCTCCGAGAAGAAGGCCAAAGCATGGTGTGCAGCGAAAGGAGG
EST: gi|100392311|gb|BY953300.1|BY953300
EST:     TTGTAGTACTTGGAAATAAAGTGGACGTGGATGGTGGCAATAGTCGAGTG                         GTCTCCGAGAAGAAGGCCAAAGCATGGTGTGCAGCGAAAGGAGGCATCCCC
genomic: TTGTAGTACTTGGAAATAAAGTGGACGTGGATGGTGGCAATAGTCGAGTGgtaagcttat ... gactgcacagGTCTCCGAGAAGAAGGCCAAAGCATGGTGTGCAGCGAAAGGAGGCATCCCC
EST: gi|100398316|gb|BY972543.1|BY972543
EST:     TTGTAGTACTTGGAAATAAAGTGGACCTGGATGGTGGCAATAGTCGAGTG                         GTCTCCGAGAAGAAGGCCAA-GCATGGTGTGCAGCGAAAGGA
genomic: TTGTAGTACTTGGAAATAAAGTGGACGTGGATGGTGGCAATAGTCGAGTGgtaagcttat ... gactgcacagGTCTCCGAGAAGAAGGCCAAAGCATGGTGTGCAGCGAAAGGA
EST: gi|100444782|gb|BY982611.1|BY982611
EST:     TTGTAGTACTTGGAAATAAAGTGGACGTGGATGGTGGCAATAGTCGAGTG                         GTCTCCGAGAAGAAGGCCAAAGCATGGTGTGCAGCGAAAGGAGGCATCCCC
genomic: TTGTAGTACTTGGAAATAAAGTGGACGTGGATGGTGGCAATAGTCGAGTGgtaagcttat ... gactgcacagGTCTCCGAGAAGAAGGCCAAAGCATGGTGTGCAGCGAAAGGAGGCATCCCC
EST: gi|162262619|gb|FC438440.1|FC438440
EST:     TTGTAGTACTTGGAAATAAAGTGGACGTGGATGGTGGCAATAGTCGAGTG                         GTCTCCGAGAAGAAGGCCAAAGCATGGTGTGCAGCGAAAGGAGGCATCCCC
genomic: TTGTAGTACTTGGAAATAAAGTGGACGTGGATGGTGGCAATAGTCGAGTGgtaagcttat ... gactgcacagGTCTCCGAGAAGAAGGCCAAAGCATGGTGTGCAGCGAAAGGAGGCATCCCC
EST: gi|100443167|gb|BY981793.1|BY981793
EST:     TTGTAGTACTTGGAAATAAAGTGGACGTGGATGGTGGCAATAGTCGAGTG                         GTCTCCGAGAAGAAGGCCAA-GCATGGTGTGCAGCGAAAAGAGGCATCCCC
genomic: TTGTAGTACTTGGAAATAAAGTGGACGTGGATGGTGGCAATAGTCGAGTGgtaagcttat ... gactgcacagGTCTCCGAGAAGAAGGCCAAAGCATGGTGTGCAGCGAAAGGAGGCATCCCC
EST: gi|100442275|gb|BY981299.1|BY981299
EST:     TTGTAGTACTTGGAAATAAAGTGGACGTGGATGGTGGCAATAGTCGAGTG                         GTCTCCGAGAAGAAGGCCAAAGCATGGTGTGC
genomic: TTGTAGTACTTGGAAATAAAGTGGACGTGGATGGTGGCAATAGTCGAGTGgtaagcttat ... gactgcacagGTCTCCGAGAAGAAGGCCAAAGCATGGTGTGC
EST: gi|67572285|gb|BJ945109.1|BJ945109
EST:     TTGTAGTACTTGGAAATAAAGTGGACGTGGATGGTGGCAATAGTCGAGTG                         GTCTCCGAGAAGAAGGCCAAAGCATGGTGTGCAGCGAAAGGAGGCATCCCC
genomic: TTGTAGTACTTGGAAATAAAGTGGACGTGGATGGTGGCAATAGTCGAGTGgtaagcttat ... gactgcacagGTCTCCGAGAAGAAGGCCAAAGCATGGTGTGCAGCGAAAGGAGGCATCCCC
EST: gi|208383813|gb|DC915152.1|DC915152
EST:     TTGTAGTACTTGGAAATAAAGTGGACGTGGATGGTGGCAATAGTCGAGTG                         GTCTCCGAGAAGAAGGCNAAAGCATGGTGTGCAGCGAAAGGAGGCATCCCC
genomic: TTGTAGTACTTGGAAATAAAGTGGACGTGGATGGTGGCAATAGTCGAGTGgtaagcttat ... gactgcacagGTCTCCGAGAAGAAGGCCAAAGCATGGTGTGCAGCGAAAGGAGGCATCCCC
EST: gi|100443114|gb|BY981740.1|BY981740
EST:     TTGTAGTACTTGGAAATAAAGTGGACGTGGATGGTGGCAATAGTCGAGTG                         GTCTCCGAGAAGAAGGCCAAAGCATGGTGTGCAGCGA
genomic: TTGTAGTACTTGGAAATAAAGTGGACGTGGATGGTGGCAATAGTCGAGTGgtaagcttat ... gactgcacagGTCTCCGAGAAGAAGGCCAAAGCATGGTGTGCAGCGA
EST: gi|100374250|gb|BY985734.1|BY985734
EST:     TTGTAGTACTTGGAAATAAAGTGGACGTGGATGGTGGCAATAGTCGAGTG                         GTCTCCGAGAAGAAGGCCAAAGCATGGTGTGCAGCGAAAGG
genomic: TTGTAGTACTTGGAAATAAAGTGGACGTGGATGGTGGCAATAGTCGAGTGgtaagcttat ... gactgcacagGTCTCCGAGAAGAAGGCCAAAGCATGGTGTGCAGCGAAAGG
EST: gi|100409462|gb|BY992023.1|BY992023
EST:     TTGTAGTACTTGGAAATAAAGTGGACGTGGATGGTGGCAATAGTCGAGTG                         GTCTCCGAGAAGAAGGCCAAAGCATGGTGTGCAGCGAAAGGAGGCATCCCC
genomic: TTGTAGTACTTGGAAATAAAGTGGACGTGGATGGTGGCAATAGTCGAGTGgtaagcttat ... gactgcacagGTCTCCGAGAAGAAGGCCAAAGCATGGTGTGCAGCGAAAGGAGGCATCCCC
EST: gi|208387145|gb|DC941317.1|DC941317
EST:     TTGTAGTACTTGGAGATAAAGTGGACGTGGATGGTGGCAATAGTCGAGTG                         GTCTCCGAGAAGAAGGCCAAAGCATGGTGTGCAGCGAAAGGAGGCATCCCC
genomic: TTGTAGTACTTGGAAATAAAGTGGACGTGGATGGTGGCAATAGTCGAGTGgtaagcttat ... gactgcacagGTCTCCGAGAAGAAGGCCAAAGCATGGTGTGCAGCGAAAGGAGGCATCCCC
EST: gi|208377828|gb|DC940940.1|DC940940
EST:     TTGTAGTACTTGGAAATAAAGTGGACGTGGATGGTGGCAATAGTCGAGTG                         GTCTCCGAGAAGAAGGCCAAAGCATGGTGTGCAGCGAAAGGAGGCATCCCC
genomic: TTGTAGTACTTGGAAATAAAGTGGACGTGGATGGTGGCAATAGTCGAGTGgtaagcttat ... gactgcacagGTCTCCGAGAAGAAGGCCAAAGCATGGTGTGCAGCGAAAGGAGGCATCCCC
EST: gi|100403295|gb|BY991132.1|BY991132
EST:     TTGTAGTACTTGGAAATAAAGTGGACGTGGATGGTGGCAATAGTCGAGTG                         GTCTCCGAGAAGAAGGCCAAAGCATGGTGTGCAGCGAAAGGAGGCATCCCC
genomic: TTGTAGTACTTGGAAATAAAGTGGACGTGGATGGTGGCAATAGTCGAGTGgtaagcttat ... gactgcacagGTCTCCGAGAAGAAGGCCAAAGCATGGTGTGCAGCGAAAGGAGGCATCCCC
EST: gi|208372735|gb|DC952622.1|DC952622
EST:     TTGTAGTACTTGGAAATAAAGTGGACGTGGATGGTGGCAATAGTCGAGTG                         GTCTCCGAGAAGAAGGCCAAAGCATGGTGTGCAGCGAAAGGAGGCATCCCC
genomic: TTGTAGTACTTGGAAATAAAGTGGACGTGGATGGTGGCAATAGTCGAGTGgtaagcttat ... gactgcacagGTCTCCGAGAAGAAGGCCAAAGCATGGTGTGCAGCGAAAGGAGGCATCCCC
EST: gi|162262701|gb|FC438483.1|FC438483
EST:     TTGTAGTACTTGGAAATAAAGTGGACGTGGATGGTGGCAATAGTCGAGTG                         GTCTCCGAGAAGAAGGCCAAAGCATGGTGTGCAGCGAAAGGAGGCATCCCC
genomic: TTGTAGTACTTGGAAATAAAGTGGACGTGGATGGTGGCAATAGTCGAGTGgtaagcttat ... gactgcacagGTCTCCGAGAAGAAGGCCAAAGCATGGTGTGCAGCGAAAGGAGGCATCCCC
EST: gi|100371248|gb|BY986011.1|BY986011
EST:     TTGTAGTACTTGGAAATAAAGTGGACGTGGATGGTGGCAATAGTCGAGTG                         GCCTCCGAGGAGAAGGCCAAAGTATGGTGTGCAGCGAAAGG
genomic: TTGTAGTACTTGGAAATAAAGTGGACGTGGATGGTGGCAATAGTCGAGTGgtaagcttat ... gactgcacagGTCTCCGAGAAGAAGGCCAAAGCATGGTGTGCAGCGAAAGG
EST: gi|100424769|gb|BY976806.1|BY976806
EST:     TTGTAGTACTTGGAAATAAAGTGGACGTGGATGGTGGCAATAGTCGAGTG                         GTCTCCGAGAAGAAG-CCAAAGCATGGTGTGCAGCG
genomic: TTGTAGTACTTGGAAATAAAGTGGACGTGGATGGTGGCAATAGTCGAGTGgtaagcttat ... gactgcacagGTCTCCGAGAAGAAGGCCAAAGCATGGTGTGCAGCG

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCAAGCCCATCCGATCAGGAGAACTTCCCCTTTGTAGTACTTGGAAATAAAGTGGACGTGGATGGTGGCAATAGTCGAGTGgtaagcttattcaagtcttattttgggttcaaccctcaaattcatacagcaaaggaccattagatcataatatatccatcgatgggccctggagctgaattatccttttaaactcctgcctttgtgaaaacctcatcacctctgatttctttggactgcacag

- - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG